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Protein

Protocadherin-12

Gene

PCDH12

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Cellular adhesion molecule that may play an important role in cell-cell interactions at interendothelial junctions. Promotes homotypic calcium-dependent aggregation and adhesion and clusters at intercellular junctions. Unable to bind to catenins, weakly associates with the cytoskeleton (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Enzyme and pathway databases

BioCyciZFISH:ENSG00000113555-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin-12
Alternative name(s):
Vascular cadherin-2
Vascular endothelial cadherin-2
Short name:
VE-cad-2
Short name:
VE-cadherin-2
Gene namesi
Name:PCDH12
ORF Names:UNQ395/PRO731
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:8657. PCDH12.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini25 – 718ExtracellularSequence analysisAdd BLAST694
Transmembranei719 – 739HelicalSequence analysisAdd BLAST21
Topological domaini740 – 1184CytoplasmicSequence analysisAdd BLAST445

GO - Cellular componenti

  • cell-cell junction Source: Ensembl
  • extracellular exosome Source: UniProtKB
  • integral component of plasma membrane Source: ProtInc
  • plasma membrane Source: ProtInc
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi51294.
OpenTargetsiENSG00000113555.
PharmGKBiPA32998.

Polymorphism and mutation databases

BioMutaiPCDH12.
DMDMi22095989.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 24Sequence analysisAdd BLAST24
ChainiPRO_000000399625 – 1184Protocadherin-12Add BLAST1160

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi415N-linked (GlcNAc...)Sequence analysis1
Glycosylationi582N-linked (GlcNAc...)Sequence analysis1
Glycosylationi659N-linked (GlcNAc...)Sequence analysis1
Glycosylationi662N-linked (GlcNAc...)Sequence analysis1
Modified residuei859PhosphoserineBy similarity1
Modified residuei1062PhosphoserineCombined sources1

Keywords - PTMi

Glycoprotein, Phosphoprotein

Proteomic databases

PaxDbiQ9NPG4.
PeptideAtlasiQ9NPG4.
PRIDEiQ9NPG4.

PTM databases

iPTMnetiQ9NPG4.
PhosphoSitePlusiQ9NPG4.

Expressioni

Tissue specificityi

Expressed in highly vascularized tissues including the heart and placenta, but most tissues contain a low level of expression. Prominent expression in the spleen.

Gene expression databases

BgeeiENSG00000113555.
CleanExiHS_PCDH12.
ExpressionAtlasiQ9NPG4. baseline and differential.
GenevisibleiQ9NPG4. HS.

Organism-specific databases

HPAiHPA051242.

Interactioni

Protein-protein interaction databases

BioGridi119445. 17 interactors.
DIPiDIP-47292N.
IntActiQ9NPG4. 2 interactors.
STRINGi9606.ENSP00000231484.

Structurei

3D structure databases

ProteinModelPortaliQ9NPG4.
SMRiQ9NPG4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini28 – 135Cadherin 1PROSITE-ProRule annotationAdd BLAST108
Domaini136 – 244Cadherin 2PROSITE-ProRule annotationAdd BLAST109
Domaini245 – 352Cadherin 3PROSITE-ProRule annotationAdd BLAST108
Domaini355 – 460Cadherin 4PROSITE-ProRule annotationAdd BLAST106
Domaini461 – 565Cadherin 5PROSITE-ProRule annotationAdd BLAST105
Domaini600 – 711Cadherin 6PROSITE-ProRule annotationAdd BLAST112

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi1177 – 1181Poly-Ser5

Sequence similaritiesi

Contains 6 cadherin domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00850000132246.
HOVERGENiHBG101142.
InParanoidiQ9NPG4.
KOiK16499.
OMAiWELEIVV.
OrthoDBiEOG091G00QD.
PhylomeDBiQ9NPG4.
TreeFamiTF352008.

Family and domain databases

Gene3Di2.60.40.60. 6 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
IPR030720. Protocadherin-12.
[Graphical view]
PANTHERiPTHR24028:SF42. PTHR24028:SF42. 3 hits.
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 6 hits.
[Graphical view]
SUPFAMiSSF49313. SSF49313. 5 hits.
PROSITEiPS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 6 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q9NPG4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMQLLQLLLG LLGPGGYLFL LGDCQEVTTL TVKYQVSEEV PSGTVIGKLS
60 70 80 90 100
QELGREERRR QAGAAFQVLQ LPQALPIQVD SEEGLLSTGR RLDREQLCRQ
110 120 130 140 150
WDPCLVSFDV LATGDLALIH VEIQVLDIND HQPRFPKGEQ ELEISESASL
160 170 180 190 200
RTRIPLDRAL DPDTGPNTLH TYTLSPSEHF ALDVIVGPDE TKHAELIVVK
210 220 230 240 250
ELDREIHSFF DLVLTAYDNG NPPKSGTSLV KVNVLDSNDN SPAFAESSLA
260 270 280 290 300
LEIQEDAAPG TLLIKLTATD PDQGPNGEVE FFLSKHMPPE VLDTFSIDAK
310 320 330 340 350
TGQVILRRPL DYEKNPAYEV DVQARDLGPN PIPAHCKVLI KVLDVNDNIP
360 370 380 390 400
SIHVTWASQP SLVSEALPKD SFIALVMADD LDSGHNGLVH CWLSQELGHF
410 420 430 440 450
RLKRTNGNTY MLLTNATLDR EQWPKYTLTL LAQDQGLQPL SAKKQLSIQI
460 470 480 490 500
SDINDNAPVF EKSRYEVSTR ENNLPSLHLI TIKAHDADLG INGKVSYRIQ
510 520 530 540 550
DSPVAHLVAI DSNTGEVTAQ RSLNYEEMAG FEFQVIAEDS GQPMLASSVS
560 570 580 590 600
VWVSLLDAND NAPEVVQPVL SDGKASLSVL VNASTGHLLV PIETPNGLGP
610 620 630 640 650
AGTDTPPLAT HSSRPFLLTT IVARDADSGA NGEPLYSIRS GNEAHLFILN
660 670 680 690 700
PHTGQLFVNV TNASSLIGSE WELEIVVEDQ GSPPLQTRAL LRVMFVTSVD
710 720 730 740 750
HLRDSARKPG ALSMSMLTVI CLAVLLGIFG LILALFMSIC RTEKKDNRAY
760 770 780 790 800
NCREAESTYR QQPKRPQKHI QKADIHLVPV LRGQAGEPCE VGQSHKDVDK
810 820 830 840 850
EAMMEAGWDP CLQAPFHLTP TLYRTLRNQG NQGAPAESRE VLQDTVNLLF
860 870 880 890 900
NHPRQRNASR ENLNLPEPQP ATGQPRSRPL KVAGSPTGRL AGDQGSEEAP
910 920 930 940 950
QRPPASSATL RRQRHLNGKV SPEKESGPRQ ILRSLVRLSV AAFAERNPVE
960 970 980 990 1000
ELTVDSPPVQ QISQLLSLLH QGQFQPKPNH RGNKYLAKPG GSRSAIPDTD
1010 1020 1030 1040 1050
GPSARAGGQT DPEQEEGPLD PEEDLSVKQL LEEELSSLLD PSTGLALDRL
1060 1070 1080 1090 1100
SAPDPAWMAR LSLPLTTNYR DNVISPDAAA TEEPRTFQTF GKAEAPELSP
1110 1120 1130 1140 1150
TGTRLASTFV SEMSSLLEML LEQRSSMPVE AASEALRRLS VCGRTLSLDL
1160 1170 1180
ATSAASGMKV QGDPGGKTGT EGKSRGSSSS SRCL
Length:1,184
Mass (Da):128,995
Last modified:October 1, 2000 - v1
Checksum:i45314473DC503E8D
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti385 – 386HN → KD in BAB55016 (PubMed:14702039).Curated2
Sequence conflicti389 – 390VH → LG in BAB55016 (PubMed:14702039).Curated2
Sequence conflicti442A → V in BAB14677 (PubMed:14702039).Curated1
Sequence conflicti753R → W in BAB14677 (PubMed:14702039).Curated1
Sequence conflicti814A → T in BAB14837 (PubMed:14702039).Curated1
Sequence conflicti970H → Y in BAB14837 (PubMed:14702039).Curated1
Sequence conflicti1051S → C in BAB14677 (PubMed:14702039).Curated1
Sequence conflicti1181S → SSSS in BAB14837 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_020368385H → N.1 PublicationCorresponds to variant rs164075dbSNPEnsembl.1
Natural variantiVAR_020369640S → N.2 PublicationsCorresponds to variant rs164515dbSNPEnsembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF231025 mRNA. Translation: AAF61931.1.
AF240635 mRNA. Translation: AAF73962.1.
AB026893 mRNA. Translation: BAA95162.1.
AK023785 mRNA. Translation: BAB14677.1.
AK024140 mRNA. Translation: BAB14837.1.
AK027282 mRNA. Translation: BAB55016.1.
AY358428 mRNA. Translation: AAQ88794.1.
CCDSiCCDS4269.1.
RefSeqiNP_057664.1. NM_016580.3.
UniGeneiHs.439474.
Hs.600230.

Genome annotation databases

EnsembliENST00000231484; ENSP00000231484; ENSG00000113555.
GeneIDi51294.
KEGGihsa:51294.
UCSCiuc003llx.4. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF231025 mRNA. Translation: AAF61931.1.
AF240635 mRNA. Translation: AAF73962.1.
AB026893 mRNA. Translation: BAA95162.1.
AK023785 mRNA. Translation: BAB14677.1.
AK024140 mRNA. Translation: BAB14837.1.
AK027282 mRNA. Translation: BAB55016.1.
AY358428 mRNA. Translation: AAQ88794.1.
CCDSiCCDS4269.1.
RefSeqiNP_057664.1. NM_016580.3.
UniGeneiHs.439474.
Hs.600230.

3D structure databases

ProteinModelPortaliQ9NPG4.
SMRiQ9NPG4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119445. 17 interactors.
DIPiDIP-47292N.
IntActiQ9NPG4. 2 interactors.
STRINGi9606.ENSP00000231484.

PTM databases

iPTMnetiQ9NPG4.
PhosphoSitePlusiQ9NPG4.

Polymorphism and mutation databases

BioMutaiPCDH12.
DMDMi22095989.

Proteomic databases

PaxDbiQ9NPG4.
PeptideAtlasiQ9NPG4.
PRIDEiQ9NPG4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000231484; ENSP00000231484; ENSG00000113555.
GeneIDi51294.
KEGGihsa:51294.
UCSCiuc003llx.4. human.

Organism-specific databases

CTDi51294.
DisGeNETi51294.
GeneCardsiPCDH12.
HGNCiHGNC:8657. PCDH12.
HPAiHPA051242.
MIMi605622. gene.
neXtProtiNX_Q9NPG4.
OpenTargetsiENSG00000113555.
PharmGKBiPA32998.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00850000132246.
HOVERGENiHBG101142.
InParanoidiQ9NPG4.
KOiK16499.
OMAiWELEIVV.
OrthoDBiEOG091G00QD.
PhylomeDBiQ9NPG4.
TreeFamiTF352008.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000113555-MONOMER.

Miscellaneous databases

ChiTaRSiPCDH12. human.
GeneWikiiPCDH12.
GenomeRNAii51294.
PROiQ9NPG4.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000113555.
CleanExiHS_PCDH12.
ExpressionAtlasiQ9NPG4. baseline and differential.
GenevisibleiQ9NPG4. HS.

Family and domain databases

Gene3Di2.60.40.60. 6 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
IPR030720. Protocadherin-12.
[Graphical view]
PANTHERiPTHR24028:SF42. PTHR24028:SF42. 3 hits.
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 6 hits.
[Graphical view]
SUPFAMiSSF49313. SSF49313. 5 hits.
PROSITEiPS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 6 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPCD12_HUMAN
AccessioniPrimary (citable) accession number: Q9NPG4
Secondary accession number(s): Q6UXB6
, Q96KB8, Q9H7Y6, Q9H8E0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 2, 2002
Last sequence update: October 1, 2000
Last modified: November 2, 2016
This is version 137 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 5
    Human chromosome 5: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.